Classification of protein function based on their sequences.
The protein function which the project focusses is the ATP binding.
Data scraping was performed on several protein sequence and their function from biological databases mainly Unitprot.
data-scrapes folder contains the sequence in the fasta format and annotation of the various proteins.
The sequence of the protein were augmented after 500 residues. The sequences, which had lower length were artifically padded with '_'. I used Artifical Neural Network (ANN) to classify the protein function (obtained after hyperparameter tuninng) :
| Method | Numbers |
|---|---|
| ANN | 2/3 layers |
| Embedding dim | 10 |
| Sequence length | 23 |
| Optimizer | Stochastic Gradient Descent (SGD) |
| Loss | Binary crossentropy |
| Nodes | 128 |
| Batch size | 128 |
| Learning Rate | 0.001 |
| Accuracy Score | 0.95 |
| Precision Score | 0.93 |
| Recall Score | 0.93 |
| F1-macro | 0.93 |